NETMORPH specifications

Information


Unique identifier OMICS_06983
Name NETMORPH
Software type Framework/Library
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Medium
Stability Stable
Maintained Yes

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Publication for NETMORPH

NETMORPH in publications

 (12)
PMCID: 5938413
PMID: 29765315
DOI: 10.3389/fninf.2018.00020

[…] means individual biophysical mechanisms involved in development and growth of neuronal circuits and analyzing the properties that arise from those mechanisms. we examined two simulation tools, netmorph (koene et al., ) and cortex3d (zubler and douglas, ), the full references and links to these tools are given in table . because these tools are newer, less known and used […]

PMCID: 4729915
PMID: 26858635
DOI: 10.3389/fncom.2015.00156

[…] simulations collected cell morphology, molecular interactions and connectivity from experimental studies. some aspects of network development in silico can be investigated using simulators such as netmorph (koene et al., ) and cx3d (zubler and douglas, ; zubler et al., ) and neural culture models (gritsun et al., ). however, many fundamental questions, including axon, and dendrite […]

PMCID: 4207466
PMID: 25340814
DOI: 10.1371/journal.pcbi.1003921

[…] fit within a spatial context . other methods have focused on the branching properties of the reconstructions and have used a wide variety of algorithms, including the simulation of growth cones with netmorph , modeling self-referential forces , or mapping one-dimensional structures to 3d trees . several of these tools, such as l-neuron , evol-neuron , and neugen , , create variable dendritic […]

PMCID: 3906031
PMID: 24489738
DOI: 10.1371/journal.pone.0086526

[…] neural networks may be classified as economic small-world networks. the paper concludes with a discussion of the findings., we generated 100,000 l2/3 pyramidal neurons from the rat cortex using the netmorph software tool . the parameters governing the stochastic growth of the axonal and dendritic arbors for each generated neuron were specified based on an analysis of available experimental […]

PMCID: 3894200
PMID: 24454938
DOI: 10.1371/journal.pone.0085858

[…] we subsequently analyzed a wide range of features of the emerging patterns of synaptic connectivity and spatial distributions of synapses. to generate neurons, we used our simulation framework netmorph, introduced in . here, we applied netmorph for the first time in a full study, analyzing many features of synaptic connectivity. our model results show that realistic neuronal morphologies, […]


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NETMORPH institution(s)
Department of Integrative Neurophysiology, Center for Neurogenomics and Cognitive Research, VU University Amsterdam, Amsterdam, Netherlands

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